The equine microbiome refers to the diverse community of microorganisms, including bacteria, fungi, and viruses, residing in various parts of a horse's body, such as the gastrointestinal tract, skin, and respiratory system. These microorganisms are involved in numerous physiological processes, including digestion, metabolism, and immune function. The composition and diversity of the microbiome can be influenced by factors such as diet, environment, and health status. Research in this area explores the characterization of the equine microbiome, its impact on health and disease, and potential applications in managing equine health. This page compiles peer-reviewed research studies and scholarly articles that investigate the composition, function, and implications of the microbiome in horses.
Lacerenza MD, Arantes JA, Reginato GM, Finardi GLF, Marchi PH, Vendramini THA, Corrêa RR, Pereira PAM, Valadão CAA, Dória RGS.This study investigated the oral microbiome of horses maintained on a high soluble carbohydrate diet based on sugarcane, in comparison to those fed a pasture-based diet composed of spp., aiming to identify associations between dietary intake, the composition of oral microbial communities, and the occurrence of dental caries and diastemata. A total of 20 healthy horses, both male and female, with an average age of 9 ± 3 years and weight of 400 ± 100 kg, without a defined breed, were selected. They were divided into two groups: the High Soluble Carbohydrate Group (HSCCG), consisting of 10 hor...
Wunderlich G, Bull M, McGilchrist N, Zhao C, Ross T, Rose M, Chapman B.The equine gut microbiome is a complex and dynamic ecosystem, housing a diverse consortium of bacteria and anaerobic fungi (AF) capable of breaking down complex plant matter and converting it into vital energy sources for their host. The aim of this study was to broaden our current understanding of bacterial and AF diversity in the equine hindgut and how it differs between cohorts and responds to dietary shifts. Results: Faecal samples were collected from 48 horses and the bacteriome and anaerobic mycobiome analysed using long-read amplicon sequencing. Samples were collected from racehorses (R...
Martin de Bustamante MG, Plummer CE, Caddey B, Gomez DE.Information regarding the impact of topical antibiotics with or without corticosteroids on the microbiota of the horses' eyes is limited. This study aimed to describe the bacterial ocular surface microbiota in healthy horses and evaluate the effect of topical antibiotics or antibiotic-corticosteroid medication on the ocular surface microbiota. Unassigned: This was a prospective, randomized, longitudinal, blinded study in which one eye of 12 horses was treated 3 times daily for 7 days with neomycin, polymyxin B and bacitracin ophthalmic ointment ( = 6) or neomycin, polymyxin B and dexametha...
Zhao Y, Liu Y, Tao J, Cao J, Lin Y, He Q, Fang X, Yun S, Du M, Su S, Bao T, Bai D, Zhang X, Dugarjaviin M.Reproductive health in mares is pivotal for the sustainability of the equine industry, yet vaginal microbiota dysbiosis remains an underrecognized contributor to infections such as endometritis and bacterial vaginosis. While spp. dominate healthy vaginal ecosystems in humans and livestock, their role in equine reproductive health, particularly in resilient breeds like Mongolian mares, is poorly understood. This study aimed to isolate and characterize a novel strain from the vaginal microbiota of healthy Mongolian mares and evaluate its probiotic potential for mitigating equine reproductive d...
Porter MM, Davis DJ, McAdams ZL, Townsend KS, Martin LM, Wilhite C, Johnson PJ, Ericsson AC.Fecal water syndrome (FWS) in horses is characterized by two-phase defecation, including both solid and liquid phases. While satisfactory explanations for FWS are unavailable, bacterial dysbiosis has been suggested as a contributing or causative factor. The objectives of this study were to determine whether fecal bacterial dysbiosis is associated with FWS in horses in the midwestern USA. Fecal samples were collected from horses with FWS and from unaffected horses at the same location. In total, 16S rRNA amplicon libraries produced from fecal bacterial DNA were sequenced using the Illumina sequ...
Jing H, Liu P, Zheng S, Cao K, Li X.Total Mixed Ration (TMR) is recognized for its balanced nutritional composition, improved feed efficiency, enhanced animal production, and stabilization of the gastrointestinal microbiome. It has been extensively implemented in intensive ruminant farming, particularly for cattle and sheep, with demonstrated positive outcomes. However, its effects on the nutritional health of non-ruminant herbivores, such as horses, remain insufficiently investigated. This study aims to evaluate the comparative effects of TMR feeding versus conventional feeding practices in Akhal-Teke horses while maintaining i...
Mohamed E, Van Cleemput J, Şahin B, Van den Broeck W, Boyen F, Nauwynck H.The equine respiratory and reproductive tract microbiomes are complex and subject to constant fluctuations. Among the microbial inhabitants, subsp. (SEZ) is recognized as the dominant bacterium. It is an opportunistic pathogen that may occasionally lead to various types of infections. A key virulence factor of SEZ is the streptolysin S (SLS) toxin, which is responsible for the characteristic β-hemolysis on blood agar and tissue damage. Viruses and bacteria may interact and aggravate lesions and disease. This study aimed to evaluate the impact of an SLS-containing supernatant from SEZ on the...
Qin X, Xi L, Zhao L, Han J, Qu H, Xu Y, Weng W.Gut microbiota exerts a pivotal function in host nutrient metabolism and maturation of the mucosal immunity. Analyzing the reciprocal interaction between horses and gut microbiota constitutes a crucial aspect of scientific feeding practices. This study aims to investigate the differences in gut microbiota among Hequ horses, Mongolian horses, and Thoroughbred horses, as well as between Thoroughbred horses at two age stages. Unassigned: Paired-end sequencing with a read length of 2×250 bp targeting the V3-V4 region of the 16S rRNA gene in fecal samples was carried out. Subsequently, differences...
Al-Ansari AS, Duggan V, Mulcahy G, Yin X, Brennan L, Cotter PD, Patel SH, O'Donovan CM, Crispie F, Walshe N.Faecal microbiome and serum metabolome have been studied in human medicine to provide a better understanding of metabolic derangements including diabetes; however, equivalent studies in equine medicine are limited. This was a case-control study conducted to identify differences in faecal microbiota composition and concurrent serum metabolite patterns between metabolically normal Connemara ponies and those with Equine Metabolic Syndrome (EMS). Thirty privately owned Connemara ponies (15 EMS and 15 controls) were included in the study. EMS was diagnosed by oral sugar test (OST). Blood samples we...
Begmatov S, Beletsky AV, Mardanov AV, Lukina AP, Glukhova LB, Karnachuk OV, Ravin NV.Genome reduction and associated metabolic deficiencies have been described in various lineages of parasitic and symbiotic microorganisms that obtain essential nutrients from their partners, and in some free-living microorganisms that inhabit stable environments. The animal gut is a relatively stable ecosystem, characterized by an abundance of organic substances and a high concentration of microorganisms, which provides favorable conditions for the survival of microorganisms with reduced genomes. Metagenomic analysis of 49 samples of feces of farm animals (cows, sheep, yaks, and horses) reveale...
Sosa-Portugal S, Dale L, Devaney J, Sharp A, Malalana F, Timofte D.The "ESKAPE" bacteria include a group of organisms known for their multidrug resistance and potential association with nosocomial infections in human and veterinary hospitals. Objective: This study aimed to evaluate the effectiveness of steam cleaning in reducing the number of ESKAPE organisms on environmental surfaces from the stables of an equine veterinary referral hospital. Methods: Environmental sampling was performed at two timepoints (pre- and post-steam cleaning) on smooth metallic doors and rough rubber stable walls. Microbiological culture targeted ESKAPE organisms and Escherichia co...
Wottlin LR, Anderson RC, Bhatta R, Leatherwood J, Olson EG, Callaway TR, Ricke SC.Environmental impacts of animal agriculture are under intense scrutiny, thus strategies to decrease greenhouse gas emissions and volatile nitrogen waste are valuable. As dietary inclusion of tannins has been shown to decrease methanogenesis and improve nitrogen retention in ruminants, this study was designed to determine the effects of graded levels of hydrolysable tannin (chestnut) and condensed tannin (mimosa) on equine in vitro cecal fermentation. Methods: Two in vitro experiments were conducted, each with three replications per treatment. Treatments were 0.2 g alfalfa without or with 5, 1...
Li C, Li X, Liu K, Xu J, Yu J, Liu Z, Mach N, Ni W, Liu C, Zhou P, Wang L, Hu S.Gut microbes play a vital role in host physiology, but whether specific bacterial functions contribute to the exceptional athletic performance of racehorses needs to be better understood. Here, we identify an association of gut butyrate-producing bacteria with athletic performance in racehorses (Thoroughbred horse). Butyrate-producing bacteria and microbial butyrate synthesis genes were significantly enriched in the racehorse gut, and the GC-MS results confirmed this conclusion. Using a mouse model, we demonstrated that sodium butyrate is sufficient to increase treadmill run time performance. ...
Pipereau K, Trably E, Santa-Catalina G, García-Bernet D, Carrere H.Horse manure is a lignocellulosic biomass found in significant quantities with a vast indigenous flora, not yet fully valorized apart from anaerobic digestion. Its use in the fermentation process can lead to the production of higher-value metabolites. This study investigates three inoculation strategies coupled with five pretreatment conditions for horse manure fermentation. Two microwave pretreatments (200W and 1000W) were compared with a conventional thermal pretreatment, a thermo-acid pretreatment, and an unpretreated condition. The sole horse manure indigenous microorganisms were used in f...
The potential of effective microorganisms in composting animal manure might be significant. This work aimed at isolating promising microbial strains for composting cattle and horse manure. A total of forty-five isolates have been isolated from soils of Northern Kazakhstan as well as cattle and horse manure. These microorganisms were extensively studied for their cellulose-degrading capacity, non-pathogenicity, protease, nitrogenase and catalase activities, as well as their growth stimulation, antagonistic ability, and growth rate. As a result, 21 potent strains were selected and genotyped for ...
Sun YF, Han ZX, Yao XK, Meng J, Ren WL, Wang CK, Yuan XX, Zeng YQ, Wang YF, Sun ZW, Wang JW.: The aim of this study was to investigate the effects of different stages of training on the intestinal microbial abundance of Yili horses. : Ten Yili horses, all aged 2 years old and weighing 305 ± 20 kg, were selected and divided into a training group and an untrained group. The training group performed riding training 6 days a week, and the untrained group moved freely in the activity circle every day. Fecal samples were collected on days 30 and 60, and the intestinal microorganisms were detected and analyzed using metagenomics. : Compared with the 30-day untrained group, the relative abu...
Kinoshita Y, Niwa H, Ueno T.In horses, the gut microbiota plays a critical role in maintaining intestinal homeostasis and overall health, but antimicrobial administration can disrupt its balance, resulting in dysbiosis, which can cause antibiotic-associated diarrhea. This study assessed the impact of intravenous cephalothin sodium administration on the equine gut microbiota by using microbial amplicon sequencing targeting the 16S-ITS-23S rRNA operon. Fecal samples from 39 clinically normal horses, 16 antibiotic-treated horses (cephalothin, n=5; minocycline, n=5; metronidazole, n=6, each administered for 5 days), and seve...
da Silva-Álvarez E, Gómez-Arrones V, Correa-Fiz F, Martín-Cano FE, Gaitskell-Phillips G, Carrasco JJ, Rey J, Aparicio IM, Peña FJ, Alonso JM....This study aims to unveil potential differences in the vaginal and uterine microbiomes in mares and jennies, and to identify possible mechanisms involved in uterine immune homeostasis. The microbiota was characterized using 16S rRNA sequencing, and the uterine proteome was analyzed using UHPLC/MS/MS in 18 samples from healthy mares and 14 from jennies. While taxonomic analysis revealed high interspecies similarities, β-diversity analysis showed distinct clustering, with only two vaginal taxa and five uterine taxa differing between species. Despite compositional differences, PICRUSt analysis s...
Li Y, Lan Y.The gut microbial importance and its crucial roles in host digestion, immunity, and metabolism have received widely attention. Horses, especially indigenous varieties such as Mongolian horses (MGH) and Guizhou horses (GZH), have not received sufficient attention, and the characteristics of their gut microbiota are still unclear. For this purpose, we collected faecal samples from eight MGH and eight GZH to compare their gut microbial differences using amplicon sequencing. The results of alpha diversity analysis indicated that the gut bacterial diversity and gut fungal abundance in GZH were sign...
Carvalho IB, Branco S, Laranjo M, Queiroga MC, Bettencourt E.Uterine health is paramount to fertility in broodmares and for the success of a breeding project, and the Lusitano breed is no exception. This study aimed to characterize the mare uterine microbiota using practical clinical evaluation methods. Mares were examined by transrectal palpation and ultrasonography, followed by the collection of samples by one of three different techniques: uterine lavage, biopsy, or swab. The results of cytology, histology, microbiology, and antimicrobial susceptibility testing were recorded, and statistical analyses were performed. Inflammation was present in 42.2% ...
Hain-Saunders NMR, Knight DR, Harvey A, Bruce M, Hampson BA, Riley TV.Clostridioides difficile is a known cause of diarrhea and colitis in human and non-human animals. While C. difficile is regularly isolated from domesticated horses, little is known about its prevalence in wild or feral populations. In Australia, the horse population encompasses a mix of both domesticated and feral animals, with the feral population of 400,000 estimated to be the largest in the world. This study investigated the presence and characteristics of C. difficile in Australian feral horses and evaluated their potential as a source or reservoir of C. difficile in the wider community. F...
Simms N, Bertone JJ, Melgarejo T, O'Shea C, Linde A.Emerging research suggests the presence of a blood microbiome in clinically healthy individuals. Characterizing bacterial composition and abundance in blood from a group of healthy horses is of clinical interest. Objective: Horses in a closed herd environment will have blood microbiomes with similarities among individuals. Methods: Twenty trail-riding horses of different breeds and ages living in relative isolation on a dry lot pasture in Colorado at 7680 ft elevation. Methods: Cross-sectional study. Blood was collected from the jugular vein into serum, blood collection, and EDTA tubes. Samp...
Laroche N, Grimm P, Julliand S, Sorci G.Sainfoin (Onobrychis viciifolia), a polyphenol-rich plant, has shown promising anti-parasitic properties in ruminants, but results in horses are fewer and inconsistent. The mechanisms of action involved are not fully understood and different factors may influence its anti-parasitic properties. Recently, it has been shown that the effect of sainfoin depends on the horse's diet. Indeed, the inclusion of dehydrated sainfoin pellets in a high starch diet limited the rate of increase in strongyle egg shedding over a short period of time (21 days). The objective of this study was to evaluate, in viv...
Curadi MC, Vallone F, Tenuzzo M, Gazzano A, Gazzano V, Macchioni F, Vannini C.The gut microbiota plays a basic role in maintaining the psychophysical health and well-being of horses. Understanding the complex interactions among microbial communities in relation to age, management, and health is a topic of growing interest. The equine microbiota, given its complexity, is subject to variations caused by internal or external stressors that can lead to metabolic problems and pathologies, i.e., obesity and laminitis. The aim of this study was to characterize the fecal microbiota of 12 purebred Arabian horses and to compare the microbial communities in two distinct management...
Żak-Bochenek A, Drábková Z, Sergedaite V, Siwińska N, Bajzert J, Pasak D, Chełmońska-Soyta A.Colic-related obstructions can reduced intestinal mucosa function and cause dysbiosis in horses, but it is unclear how defense barrier and secretory immunoglobulin A (SIgA) secretion is disrupted. Objective: The aim of the study is to evaluate the effect of severity of colic signs and treatments on fecal SIgA and fecal lactate in horses. Methods: Sixty-two client owned hospitalised horses with colic and eight healthy horses. Methods: Prospective clinical trial. Fecal samples were taken daily for 7 days. SIgA was analyzed using ELISA, and D/L-lactate measured with a commercial kit. Results: A...
Zhang W, Guo R, Sulayman A, Sun Y, Liu S.Microbiota in the gastrointestinal tract play a crucial role in nutrient digestion, health and so forth in equines. As the research attention on gut microbes has increased, several studies have investigated the composition of the gastrointestinal microbial flora in equines. This article reviews the effects of breed, age, intestinal site, nutritional management and diseases on the gastrointestinal microbiota of horses and donkeys, thus offering references for improving the gastrointestinal microecological environment in these animals and preventing and controlling disease occurrence in them.
Kaštovská E, Mastný J, Choma M, Čapek P, Jirků M, Bitomský M, Konvička M.Based on a growing understanding of the role of wild megafauna in the functioning of natural ecosystems, trophic rewilding by large herbivores is increasingly used as a nature-based solution to mitigate biodiversity loss and climate change in Europe and beyond. Despite the growing interest in implementing nature-based approaches to restore key non-productive ecosystem services, there is relatively little data available to assess the benefits and risks of rewilding projects. We therefore investigated the effects of year-round grazing by large ungulates on plant biomass characteristics and their...
Zhu D, Li S, Xu Z, Kulyar MF, Bai X, Wang Y, Wang B, Khateeb E, Deng D, Wang L, Chen Y, Guo A, Shen Y.Diarrhea presents a substantial risk of high morbidity and mortality among foals. Although studies have shown connections between gut microbiota and several gastrointestinal diseases, there is still inadequate information on gut microbial alterations in foals during diarrhea. In this study, we conducted 16S rRNA and ITS gene amplicon sequencing to investigate gut bacterial and fungal differences between healthy and diarrheic foals. The results unveiled significant reductions in gut bacterial and fungal diversities among foals experiencing diarrhea, accompanied by notable shifts in the composit...
Pipereau K, Trably E, Santa-Catalina G, García-Bernet D, Carrere H.This study focuses on thermal and non-thermal effects of microwave pretreatment on horse dung as indigenous inoculum before xylose and wheat straw fermentation, emphasizing metabolite production and microbial community changes. Two horse dung microwave pretreatments (MW40°C and MW95°C) were compared with a conventional thermal pretreatment (Th95°C) and an unpretreated condition (Ctrl). Microwave heating pretreatment (MW95°C) leads to similar production as a conventional thermal pretreatment (Th95°C) for xylose and wheat straw fermentation while MW40°C treatment was similar to the control...
Lan Y, Li Y, Wang Y.In recent years, the importance of gut microbiota in digestive absorption, metabolism, and immunity has garnered increasing attention. China possess abundant horse breed resources, particularly Guizhou horses, which play vital roles in local agriculture, tourism, and transportation. Despite this, there is a lack of comparative studies on the gut microbiota of native Guizhou horses (GZH) and imported Dutch Warmblood horses (WH). To address this gap, fecal samples were collected from both GZH and WH, and 16S rRNA high-throughput sequencing was utilized to analyze the differences in their gut mic...
de Jonge N, Carlsen B, Christensen MH, Pertoldi C, Nielsen JL.The gut microbiome plays a critical role in many aspects of host life, and the microbial community composition is heavily influenced by the prevailing conditions in the gut environment. Community composition has been suggested to have large implications for conservation efforts, and gut health has become of interest for optimizing animal care in captivity. In this study, we explore the gut microbiome of a wide range of animals in the context of conservation biology. The composition of the gut microbial community of 54 mammalian animal species was investigated using 16S rRNA gene amplicon seque...
Julliand V, de Vaux A, Millet L, Fonty G.Detection and quantification of cellulolytic bacteria with oligonucleotide probes showed that Ruminococcus flavefaciens was the predominant species in the pony and donkey cecum. Fibrobacter succinogenes and Ruminococcus albus were present at low levels. Four isolates, morphologically resembling R. flavefaciens, differed from ruminal strains by their carbohydrate utilization and their end products of cellobiose fermentation.
Biddle AS, Black SJ, Blanchard JL.Laminitis is a chronic, crippling disease triggered by the sudden influx of dietary starch. Starch reaches the hindgut resulting in enrichment of lactic acid bacteria, lactate accumulation, and acidification of the gut contents. Bacterial products enter the bloodstream and precipitate systemic inflammation. Hindgut lactate levels are normally low because specific bacterial groups convert lactate to short chain fatty acids. Why this mechanism fails when lactate levels rapidly rise, and why some hindgut communities can recover is unknown. Fecal samples from three adult horses eating identical di...
Biddle AS, Tomb JF, Fan Z.Due to modern management practices and the availability of energy dense feeds, obesity is a serious and increasingly common health problem for horses. Equine obesity is linked to insulin resistance and exacerbation of inflammatory issues such as osteoarthritis and laminitis. While the gut microbiome is thought to play a part in metabolic status in horses, bacterial communities associated with obesity have yet to be described. Here we report differences in metabolic factors in the blood of obese, normal and lean horses correlated with differences in gut microbiome composition. We report that ob...
Golomidova A, Kulikov E, Isaeva A, Manykin A, Letarov A.The diversity of coliphages and indigenous coliform strains (ICSs) simultaneously present in horse feces was investigated by culture-based and molecular methods. The richness of coliforms (as estimated by the Chao1 method) is about 1,000 individual ICSs distinguishable by genomic fingerprinting present in a single sample of feces. This unexpectedly high value indicates that some factor limits the competition of coliform bacteria in the horse gut microbial system. In contrast, the diversity of phages active against any selected ICS is generally limited to one to three viral genotypes present in...
Edwards JE, Shetty SA, van den Berg P, Burden F, van Doorn DA, Pellikaan WF, Dijkstra J, Smidt H.Equine gut microbiology studies to date have primarily focused on horses and ponies, which represent only one of the eight extant equine species. This is despite asses and mules comprising almost half of the world's domesticated equines, and donkeys being superior to horses/ponies in their ability to degrade dietary fiber. Limited attention has also been given to commensal anaerobic fungi and archaea even though anaerobic fungi are potent fiber degrading organisms, the activity of which is enhanced by methanogenic archaea. Therefore, the objective of this study was to broaden the current knowl...
Schoster A, Mosing M, Jalali M, Staempfli HR, Weese JS.The intestinal microbiota is important for health and disease. Factors that disturb the equine intestinal microbiota need further investigation. Objective: To determine the effects of transport, fasting and anaesthesia on the faecal microbiota of healthy adult horses using next-generation sequencing. Methods: Experimental trial. Methods: Faecal samples were taken from 8 horses at baseline, after transport, 12 h of fasting and 24, 48 and 72 h after a 6 h anaesthesia. Next generation sequencing of the V4 region of the 16S rRNA gene was used to assess the microbial composition of faeces. Alpha...
Clark A, Sallé G, Ballan V, Reigner F, Meynadier A, Cortet J, Koch C, Riou M, Blanchard A, Mach N.Gastrointestinal strongyles are a major threat to horses' health and welfare. Given that strongyles inhabit the same niche as the gut microbiota, they may interact with each other. These beneficial or detrimental interactions are unknown in horses and could partly explain contrasted susceptibility to infection between individuals. To address these questions, an experimental pasture trial with 20 worm-free female Welsh ponies (10 susceptible (S) and 10 resistant (R) to parasite infection) was implemented for 5 months. Fecal egg counts (FEC), hematological and biochemical data, body weight and g...
Stewart HL, Pitta D, Indugu N, Vecchiarelli B, Engiles JB, Southwood LL.OBJECTIVE To characterize the fecal microbiota of horses and to investigate alterations in that microbiota on the basis of sample collection site (rectum vs stall floor), sample location within the fecal ball (center vs surface), and duration of environmental exposure (collection time). ANIMALS 6 healthy adult mixed-breed mares. PROCEDURES From each horse, feces were collected from the rectum and placed on a straw-bedded stall floor. A fecal ball was selected for analysis immediately after removal from the rectum and at 0 (immediately), 2, 6, 12, and 24 hours after placement on the stall floor...
Lin C, Stahl DA.A total of six 16S rRNA targeted oligonucleotide probes were used to quantify Fibrobacter abundance and diversity in the gastrointestinal contents of a pony. Approximately 12% of the total 16S rRNA extracted from cecal contents hybridized with a Fibrobacter genus-specific probe and a Fibrobacter succinogenes species-specific probe. However, no significant hybridization was observed with a probe for the species. Fibrobacter intestinalis or with three probes for F. succinogenes subspecies. This suggested the presence of a previously undescribed population of F. succinogenes-like organisms. Novel...
Milinovich GJ, Burrell PC, Pollitt CC, Klieve AV, Blackall LL, Ouwerkerk D, Woodland E, Trott DJ.Alimentary carbohydrate overload is a significant cause of laminitis in horses and is correlated with drastic shifts in the composition of hindgut microbiota. Equine hindgut streptococcal species (EHSS), predominantly Streptococcus lutetiensis, have been shown to be the most common microorganisms culturable from the equine caecum prior to the onset of laminitis. However, the inherent biases of culture-based methods are estimated to preclude up to 70% of the normal caecal microbiota. The objective of this study was to evaluate bacterial population shifts occurring in the equine caecum throughou...
Bond SL, Timsit E, Workentine M, Alexander T, Léguillette R.The microbial composition of the equine respiratory tract, and differences due to mild equine asthma (also called Inflammatory Airway Disease (IAD)) have not been reported. The primary treatment for control of IAD in horses are corticosteroids. The objectives were to characterize the upper and lower respiratory tract microbiota associated with respiratory health and IAD, and to investigate the effects of dexamethasone on these bacterial communities using high throughput sequencing. Results: The respiratory microbiota of horses was dominated by four major phyla, Proteobacteria (43.85%), Actinob...
Ahmed MO, Clegg PD, Williams NJ, Baptiste KE, Bennett M.Escherichia coli isolates of equine faecal origin were investigated for antibiotic resistance, resistance genes and their ability to perform horizontal transfer. Methods: In total, 264 faecal samples were collected from 138 horses in hospital and community livery premises in northwest England, yielding 296 resistant E. coli isolates. Isolates were tested for susceptibility to antimicrobial drugs by disc diffusion and agar dilution methods in order to determine minimum inhibitory concentrations (MIC). PCR amplification was used to detect genes conferring resistance to: ampicillin (TEM and SHV b...
Morvan B, Bonnemoy F, Fonty G, Gouet P.Total number of bacteria, cellulolytic bacteria, and H2-utilizing microbial populations (methanogenic archaea, acetogenic and sulfate-reducing bacteria) were enumerated in fresh rumen samples from sheep, cattle, buffaloes, deer, llamas, and caecal samples from horses. Methanogens and sulfate reducers were found in all samples, whereas acetogenes were not detected in some samples of each animal. Archaea methanogens were the largest H2-utilizing populations in all animals, and a correlation was observed between the numbers of methanogens and those of cellulolytic microorganisms. Higher counts of...
Proudman CJ, Hunter JO, Darby AC, Escalona EE, Batty C, Turner C.The intestinal bacterial community of the horse is a key determinant of intestinal and whole body health. Understanding the bacterial community structure and function is an important foundation for studies of intestinal health and disease. Objective: To describe the faecal bacterial community and volatile organic compounds (VOCs) of the faecal metabolome of healthy Thoroughbred racehorses and to characterise responses to dietary supplementation with amylase-rich malt extract. Methods: Intervention study. Methods: Faecal samples were collected noninvasively before and 6 weeks after supplementat...
Zhao Y, Li B, Bai D, Huang J, Shiraigo W, Yang L, Zhao Q, Ren X, Wu J, Bao W, Dugarjaviin M.The hindgut of horses is an anaerobic fermentative chamber for a complex and dynamic microbial population, which plays a critical role in health and energy requirements. Research on the gut microbiota of Mongolian horses has not been reported until now as far as we know. Mongolian horse is a major local breed in China. We performed high-throughput sequencing of the 16S rRNA genes V4 hypervariable regions from gut fecal material to characterize the gut microbiota of Mongolian horses and compare them to the microbiota in Thoroughbred horses. Fourteen Mongolian and 19 Thoroughbred horses were use...
Bulmer LS, Murray JA, Burns NM, Garber A, Wemelsfelder F, McEwan NR, Hastie PM.Gut microbiota have been associated with health, disease and behaviour in several species and are an important link in gut-brain axis communication. Diet plays a key role in affecting the composition of gut microbiota. In horses, high-starch diets alter the hindgut microbiota. High-starch diets are also associated with increased behavioural reactivity in horses. These changes in microbiota and behaviour may be associated. This study compares the faecal microbiota and behaviour of 10 naïve ponies. A cross-over design was used with experimental groups fed high-starch (HS) or high-fibre (HF) die...
Kennedy R, Lappin DF, Dixon PM, Buijs MJ, Zaura E, Crielaard W, O'Donnell L, Bennett D, Brandt BW, Riggio MP.Equine periodontal disease is a common and painful condition and its severe form, periodontitis, can lead to tooth loss. Its aetiopathogenesis remains poorly understood despite recent increased awareness of this disorder amongst the veterinary profession. Bacteria have been found to be causative agents of the disease in other species, but current understanding of their role in equine periodontitis is extremely limited. The aim of this study was to use high-throughput sequencing to identify the microbiome associated with equine periodontitis and oral health. Subgingival plaque samples from 24 h...
Lindenberg F, Krych L, Kot W, Fielden J, Frøkiær H, van Galen G, Nielsen DS, Hansen AK.Shortly after birth the mammalian gut is colonized, by a transient microbiota, highly susceptible to environment and diet, that eventually stabilizes and becomes the resident gut microbiota. In a window of opportunity during the colonization, oral tolerance is established towards resident bacteria. In this study, the development of the equine gut microbiota was investigated in ten foals from parturition until post weaning. We found great differences in the core species of the gut microbiota composition between time-matched samples on Day 7 and 20 post-partum. Between day 20 and Day 50 post-par...
Medina B, Girard ID, Jacotot E, Julliand V.Eight horses were allotted into pairs consisting of one cecum- and right ventral colon-fistulated animal and one cecum-fistulated animal. They were fed daily at the same level of intake either a high-fiber (HF) or a high-starch (HS) diet without or with 10 g of a Saccharomyces cerevisiae preparation, in a 4 x 4 Latin square design. The HS diet provided a starch overload (i.e., 3.4 g starch x kg(-1) BW x meal(-1)) while maintaining a high amount of fiber intake (i.e., dietary NDF/starch ratio was 1.0). A 21-d period of adaptation to the treatments occurred before cecal and colonic contents were...
Milinovich GJ, Trott DJ, Burrell PC, van Eps AW, Thoefner MB, Blackall LL, Al Jassim RA, Morton JM, Pollitt CC.In the horse, carbohydrate overload is thought to play an integral role in the onset of laminitis by drastically altering the profile of bacterial populations in the hindgut. The objectives of this study were to develop and validate microbial ecology methods to monitor changes in bacterial populations throughout the course of experimentally induced laminitis and to identify the predominant oligofructose-utilizing organisms. Laminitis was induced in five horses by administration of oligofructose. Faecal specimens were collected at 8 h intervals from 72 h before to 72 h after the administration ...
Grimm P, Philippeau C, Julliand V.Faeces could be used for evaluating the balance of the equine hindgut microbial ecosystem, which would offer a practical method for assessing gut health and how this relates to disease. However, previous studies concluded that faeces microbial ecosystem was not representative of the proximal hindgut (caecum and ventral colon). This study aimed to evaluate if variations of the faecal microbial ecosystem were similar to those observed in the proximal hindgut. Six horses, fistulated in the caecum and right ventral (RV) colon, were subjected to a gradual change of diet, from a 100% hay (high fibre...
Husso A, Jalanka J, Alipour MJ, Huhti P, Kareskoski M, Pessa-Morikawa T, Iivanainen A, Niku M.The establishment of the intestinal microbiota is critical for the digestive and immune systems. We studied the early development of the rectal microbiota in horse, a hindgut fermenter, from birth until 7 days of age, by qPCR and 16S rRNA gene amplicon sequencing. To evaluate initial sources of the foal microbiota, we characterised dam fecal, vaginal and oral microbiotas. We utilised an amplicon sequence variant (ASV) pipeline to maximise resolution and reproducibility. Stringent ASV filtering based on prevalence and abundance in samples and controls purged contaminants while preserving intest...
Moreau MM, Eades SC, Reinemeyer CR, Fugaro MN, Onishi JC.In the equine carbohydrate overload model of acute laminitis, disease progression is associated with changes in bacteria found in the cecum. To date, research has focused on changes in specific Gram-positive bacteria in this portion of the intestinal tract. Metagenomic methods are now available making it possible to interrogate microbial communities using animal protocols that sufficiently power a study. In this study, the microbiota in cecal fluid collected from control, non-laminitic horses (n=8) and from horses with early-stage acute laminitis induced with either oligofructan (n=6) or corns...
Quercia S, Freccero F, Castagnetti C, Soverini M, Turroni S, Biagi E, Rampelli S, Lanci A, Mariella J, Chinellato E, Brigidi P, Candela M.Even if horses strictly depend on the gut microbiota for energy homeostasis, only a few molecular studies have focused on its characterisation and none on the perinatal gut microbial colonisation process. Objective: To explore the perinatal colonisation process of the foal gut microbial ecosystem and the temporal dynamics of the ecosystem assembly during the first days of life. Methods: Longitudinal study. Methods: Thirteen Standardbred mare-foal pairs were included in the study. For each pair, at delivery we collected the mare amniotic fluid, faeces and colostrum, and the foal meconium. Milk ...
Stewart HL, Southwood LL, Indugu N, Vecchiarelli B, Engiles JB, Pitta D.The faecal microbiota is emerging as potentially important in intestinal disease. More research is needed to characterise the faecal microbiota from horses with colic. Objective: To compare the relative abundance of bacterial populations comprising the faecal microbiota in horses presenting for colic compared with an elective surgical procedure. Methods: Prospective observational clinical study. Methods: Admission faecal samples were collected from horses presenting for colic and elective surgical procedures. Faecal samples were extracted for genomic DNA, PCR- amplified, sequenced and analysed...
Perkins GA, den Bakker HC, Burton AJ, Erb HN, McDonough SP, McDonough PL, Parker J, Rosenthal RL, Wiedmann M, Dowd SE, Simpson KW.Little is known about the gastric mucosal microbiota in healthy horses, and its role in gastric disease has not been critically examined. The present study used a combination of 16S rRNA bacterial tag-encoded pyrosequencing (bTEFAP) and fluorescence in situ hybridization (FISH) to characterize the composition and spatial distribution of selected gastric mucosal microbiota of healthy horses. Biopsy specimens of the squamous, glandular, antral, and any ulcerated mucosa were obtained from 6 healthy horses by gastroscopy and from 3 horses immediately postmortem. Pyrosequencing was performed on bio...
Schoster A, Weese JS, Guardabassi L.The gastrointestinal microbiota is extremely important for human and animal health. Investigations into the composition of the microbiota and its therapeutic modification have received increasing interest in human and veterinary medicine. Probiotics are a way of modifying the microbiota and have been tested to prevent and treat diseases. Probiotics are proposed to exert their beneficial effects through various pathways. Production of antimicrobial compounds targeting intestinal pathogens, general immune stimulation, and colonization resistance are among these mechanisms. Despite widespread ava...
Schoster A, Staempfli HR, Guardabassi LG, Jalali M, Weese JS.Diarrhea in foals affects up to 60% of foals during the first six months of life. The effect of diarrhea on the fecal bacterial microbiota in foals has not been investigated. Little is known on the fecal bacterial microbial richness and diversity of foals at a young age. The objective was to compare the fecal bacterial microbiota of healthy foals to foals with diarrhea at two and four weeks of life. Methods: Fecal samples were collected from foals (n = 20) at 1-14 (T1) and 15-28 (T2) days of age and analyzed using high throughput sequencing. Differences in relative abundance of bacterial tax...
Chaucheyras-Durand F, Sacy A, Karges K, Apper E.Horses are large non-ruminant herbivores and rely on microbial fermentation for energy, with more than half of their maintenance energy requirement coming from microbial fermentation occurring in their enlarged caecum and colon. To achieve that, the gastro-intestinal tract (GIT) of horses harbors a broad range of various microorganisms, differing in each GIT segment, which are essential for efficient utilization of feed, especially to use nutrients that are not or little degraded by endogenous enzymes. In addition, like in other animal species, the GIT microbiota is in permanent interplay with...
